CellAgent: An LLM-driven Multi-Agent Framework for Automated Single-cell Data Analysis

Single-cell RNA sequencing (scRNA-seq) data analysis is crucial for biological research, as it enables the precise characterization of cellular heterogeneity. However, manual manipulation of various tools to achieve desired outcomes can be labor-intensive for researchers. To address this, we introduce CellAgent (http://cell.agent4science.cn/), an LLM-driven multi-agent framework, specifically designed for the automatic processing and execution of scRNA-seq data analysis tasks, providing high-quality results with no human intervention. Firstly, to adapt general LLMs to the biological field, CellAgent constructs LLM-driven biological expert roles - planner, executor, and evaluator - each with specific responsibilities. Then, CellAgent introduces a hierarchical decision-making mechanism to coordinate these biological experts, effectively driving the planning and step-by-step execution of complex data analysis tasks. Furthermore, we propose a self-iterative optimization mechanism, enabling CellAgent to autonomously evaluate and optimize solutions, thereby guaranteeing output quality. We evaluate CellAgent on a comprehensive benchmark dataset encompassing dozens of tissues and hundreds of distinct cell types. Evaluation results consistently show that CellAgent effectively identifies the most suitable tools and hyperparameters for single-cell analysis tasks, achieving optimal performance. This automated framework dramatically reduces the workload for science data analyses, bringing us into the "Agent for Science" era.

vMFER: Von Mises-Fisher Experience Resampling Based on Uncertainty of Gradient Directions for Policy Improvement

Reinforcement Learning (RL) is a widely employed technique in decision-making problems, encompassing two fundamental operations -- policy evaluation and policy improvement. Enhancing learning efficiency remains a key challenge in RL, with many efforts focused on using ensemble critics to boost policy evaluation efficiency. However, when using multiple critics, the actor in the policy improvement process can obtain different gradients. Previous studies have combined these gradients without considering their disagreements. Therefore, optimizing the policy improvement process is crucial to enhance learning efficiency. This study focuses on investigating the impact of gradient disagreements caused by ensemble critics on policy improvement. We introduce the concept of uncertainty of gradient directions as a means to measure the disagreement among gradients utilized in the policy improvement process. Through measuring the disagreement among gradients, we find that transitions with lower uncertainty of gradient directions are more reliable in the policy improvement process. Building on this analysis, we propose a method called von Mises-Fisher Experience Resampling (vMFER), which optimizes the policy improvement process by resampling transitions and assigning higher confidence to transitions with lower uncertainty of gradient directions. Our experiments demonstrate that vMFER significantly outperforms the benchmark and is particularly well-suited for ensemble structures in RL.

SheetAgent: A Generalist Agent for Spreadsheet Reasoning and Manipulation via Large Language Models

Spreadsheet manipulation is widely existing in most daily works and significantly improves working efficiency. Large language model (LLM) has been recently attempted for automatic spreadsheet manipulation but has not yet been investigated in complicated and realistic tasks where reasoning challenges exist (e.g., long horizon manipulation with multi-step reasoning and ambiguous requirements). To bridge the gap with the real-world requirements, we introduce $\textbf{SheetRM}$, a benchmark featuring long-horizon and multi-category tasks with reasoning-dependent manipulation caused by real-life challenges. To mitigate the above challenges, we further propose $\textbf{SheetAgent}$, a novel autonomous agent that utilizes the power of LLMs. SheetAgent consists of three collaborative modules: $\textit{Planner}$, $\textit{Informer}$, and $\textit{Retriever}$, achieving both advanced reasoning and accurate manipulation over spreadsheets without human interaction through iterative task reasoning and reflection. Extensive experiments demonstrate that SheetAgent delivers 20-30% pass rate improvements on multiple benchmarks over baselines, achieving enhanced precision in spreadsheet manipulation and demonstrating superior table reasoning abilities. More details and visualizations are available at https://sheetagent.github.io.

Enhancing Robotic Manipulation with AI Feedback from Multimodal Large Language Models

Recently, there has been considerable attention towards leveraging large language models (LLMs) to enhance decision-making processes. However, aligning the natural language text instructions generated by LLMs with the vectorized operations required for execution presents a significant challenge, often necessitating task-specific details. To circumvent the need for such task-specific granularity, inspired by preference-based policy learning approaches, we investigate the utilization of multimodal LLMs to provide automated preference feedback solely from image inputs to guide decision-making. In this study, we train a multimodal LLM, termed CriticGPT, capable of understanding trajectory videos in robot manipulation tasks, serving as a critic to offer analysis and preference feedback. Subsequently, we validate the effectiveness of preference labels generated by CriticGPT from a reward modeling perspective. Experimental evaluation of the algorithm's preference accuracy demonstrates its effective generalization ability to new tasks. Furthermore, performance on Meta-World tasks reveals that CriticGPT's reward model efficiently guides policy learning, surpassing rewards based on state-of-the-art pre-trained representation models.

Uni-RLHF: Universal Platform and Benchmark Suite for Reinforcement Learning with Diverse Human Feedback

Reinforcement Learning with Human Feedback (RLHF) has received significant attention for performing tasks without the need for costly manual reward design by aligning human preferences. It is crucial to consider diverse human feedback types and various learning methods in different environments. However, quantifying progress in RLHF with diverse feedback is challenging due to the lack of standardized annotation platforms and widely used unified benchmarks. To bridge this gap, we introduce Uni-RLHF, a comprehensive system implementation tailored for RLHF. It aims to provide a complete workflow from real human feedback, fostering progress in the development of practical problems. Uni-RLHF contains three packages: 1) a universal multi-feedback annotation platform, 2) large-scale crowdsourced feedback datasets, and 3) modular offline RLHF baseline implementations. Uni-RLHF develops a user-friendly annotation interface tailored to various feedback types, compatible with a wide range of mainstream RL environments. We then establish a systematic pipeline of crowdsourced annotations, resulting in large-scale annotated datasets comprising more than 15 million steps across 30+ popular tasks. Through extensive experiments, the results in the collected datasets demonstrate competitive performance compared to those from well-designed manual rewards. We evaluate various design choices and offer insights into their strengths and potential areas of improvement. We wish to build valuable open-source platforms, datasets, and baselines to facilitate the development of more robust and reliable RLHF solutions based on realistic human feedback. The website is available at https://uni-rlhf.github.io/.

A Novel Paradigm for Neural Computation: X-Net with Learnable Neurons and Adaptable Structure

Artificial neural networks (ANNs) have permeated various disciplinary domains, ranging from bioinformatics to financial analytics, where their application has become an indispensable facet of contemporary scientific research endeavors. However, the inherent limitations of traditional neural networks arise due to their relatively fixed network structures and activation functions. 1, The type of activation function is single and relatively fixed, which leads to poor "unit representation ability" of the network, and it is often used to solve simple problems with very complex networks; 2, the network structure is not adaptive, it is easy to cause network structure redundant or insufficient. To address the aforementioned issues, this study proposes a novel neural network called X-Net. By utilizing our designed Alternating Backpropagation mechanism, X-Net dynamically selects appropriate activation functions based on derivative information during training to enhance the network's representation capability for specific tasks. Simultaneously, it accurately adjusts the network structure at the neuron level to accommodate tasks of varying complexities and reduce computational costs. Through a series of experiments, we demonstrate the dual advantages of X-Net in terms of reducing model size and improving representation power. Specifically, in terms of the number of parameters, X-Net is only 3$\%$ of baselines on average, and only 1.4$\%$ under some tasks. In terms of representation ability, X-Net can achieve an average $R^2$=0.985 on the fitting task by only optimizing the activation function without introducing any parameters. Finally, we also tested the ability of X-Net to help scientific discovery on data from multiple disciplines such as society, energy, environment, and aerospace, and achieved concise and good results.

OVD-Explorer: Optimism Should Not Be the Sole Pursuit of Exploration in Noisy Environments

In reinforcement learning, the optimism in the face of uncertainty (OFU) is a mainstream principle for directing exploration towards less explored areas, characterized by higher uncertainty. However, in the presence of environmental stochasticity (noise), purely optimistic exploration may lead to excessive probing of high-noise areas, consequently impeding exploration efficiency. Hence, in exploring noisy environments, while optimism-driven exploration serves as a foundation, prudent attention to alleviating unnecessary over-exploration in high-noise areas becomes beneficial. In this work, we propose Optimistic Value Distribution Explorer (OVD-Explorer) to achieve a noise-aware optimistic exploration for continuous control. OVD-Explorer proposes a new measurement of the policy's exploration ability considering noise in optimistic perspectives, and leverages gradient ascent to drive exploration. Practically, OVD-Explorer can be easily integrated with continuous control RL algorithms. Extensive evaluations on the MuJoCo and GridChaos tasks demonstrate the superiority of OVD-Explorer in achieving noise-aware optimistic exploration.

MetaSymNet: A Dynamic Symbolic Regression Network Capable of Evolving into Arbitrary Formulations

Mathematical formulas serve as the means of communication between humans and nature, encapsulating the operational laws governing natural phenomena. The concise formulation of these laws is a crucial objective in scientific research and an important challenge for artificial intelligence (AI). While traditional artificial neural networks (MLP) excel at data fitting, they often yield uninterpretable black box results that hinder our understanding of the relationship between variables x and predicted values y. Moreover, the fixed network architecture in MLP often gives rise to redundancy in both network structure and parameters. To address these issues, we propose MetaSymNet, a novel neural network that dynamically adjusts its structure in real-time, allowing for both expansion and contraction. This adaptive network employs the PANGU meta function as its activation function, which is a unique type capable of evolving into various basic functions during training to compose mathematical formulas tailored to specific needs. We then evolve the neural network into a concise, interpretable mathematical expression. To evaluate MetaSymNet's performance, we compare it with four state-of-the-art symbolic regression algorithms across more than 10 public datasets comprising 222 formulas. Our experimental results demonstrate that our algorithm outperforms others consistently regardless of noise presence or absence. Furthermore, we assess MetaSymNet against MLP and SVM regarding their fitting ability and extrapolation capability, these are two essential aspects of machine learning algorithms. The findings reveal that our algorithm excels in both areas. Finally, we compared MetaSymNet with MLP using iterative pruning in network structure complexity. The results show that MetaSymNet's network structure complexity is obviously less than MLP under the same goodness of fit.

Prioritized Trajectory Replay: A Replay Memory for Data-driven Reinforcement Learning

In recent years, data-driven reinforcement learning (RL), also known as offline RL, have gained significant attention. However, the role of data sampling techniques in offline RL has been overlooked despite its potential to enhance online RL performance. Recent research suggests applying sampling techniques directly to state-transitions does not consistently improve performance in offline RL. Therefore, in this study, we propose a memory technique, (Prioritized) Trajectory Replay (TR/PTR), which extends the sampling perspective to trajectories for more comprehensive information extraction from limited data. TR enhances learning efficiency by backward sampling of trajectories that optimizes the use of subsequent state information. Building on TR, we build the weighted critic target to avoid sampling unseen actions in offline training, and Prioritized Trajectory Replay (PTR) that enables more efficient trajectory sampling, prioritized by various trajectory priority metrics. We demonstrate the benefits of integrating TR and PTR with existing offline RL algorithms on D4RL. In summary, our research emphasizes the significance of trajectory-based data sampling techniques in enhancing the efficiency and performance of offline RL algorithms.

Ensemble-based Offline-to-Online Reinforcement Learning: From Pessimistic Learning to Optimistic Exploration

Offline reinforcement learning (RL) is a learning paradigm where an agent learns from a fixed dataset of experience. However, learning solely from a static dataset can limit the performance due to the lack of exploration. To overcome it, offline-to-online RL combines offline pre-training with online fine-tuning, which enables the agent to further refine its policy by interacting with the environment in real-time. Despite its benefits, existing offline-to-online RL methods suffer from performance degradation and slow improvement during the online phase. To tackle these challenges, we propose a novel framework called Ensemble-based Offline-to-Online (E2O) RL. By increasing the number of Q-networks, we seamlessly bridge offline pre-training and online fine-tuning without degrading performance. Moreover, to expedite online performance enhancement, we appropriately loosen the pessimism of Q-value estimation and incorporate ensemble-based exploration mechanisms into our framework. Experimental results demonstrate that E2O can substantially improve the training stability, learning efficiency, and final performance of existing offline RL methods during online fine-tuning on a range of locomotion and navigation tasks, significantly outperforming existing offline-to-online RL methods.